Krypton in PDB 5o17: Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
Protein crystallography data
The structure of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton, PDB code: 5o17
was solved by
N.Colloc'h,
T.Prange,
B.Vallone,
P.Carpentier,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
20.00 /
1.80
|
Space group
|
H 3 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
88.010,
88.010,
113.490,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
17.3 /
22
|
Other elements in 5o17:
The structure of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton also contains other interesting chemical elements:
Krypton Binding Sites:
The binding sites of Krypton atom in the Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
(pdb code 5o17). This binding sites where shown within
5.0 Angstroms radius around Krypton atom.
In total 4 binding sites of Krypton where determined in the
Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton, PDB code: 5o17:
Jump to Krypton binding site number:
1;
2;
3;
4;
Krypton binding site 1 out
of 4 in 5o17
Go back to
Krypton Binding Sites List in 5o17
Krypton binding site 1 out
of 4 in the Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
Mono view
Stereo pair view
|
A full contact list of Krypton with other atoms in the Kr binding
site number 1 of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Kr204
b:25.4
occ:0.80
|
OG
|
A:SER55
|
3.3
|
10.1
|
1.0
|
CD2
|
A:LEU56
|
3.5
|
15.7
|
1.0
|
N
|
A:ALA29
|
3.6
|
7.2
|
1.0
|
CG
|
A:LEU56
|
3.6
|
13.3
|
1.0
|
CD2
|
A:PHE32
|
3.6
|
8.2
|
1.0
|
CA
|
A:ALA29
|
3.7
|
7.9
|
1.0
|
C
|
A:PHE28
|
3.7
|
7.8
|
1.0
|
O
|
A:PHE28
|
3.9
|
7.8
|
1.0
|
CE2
|
A:PHE32
|
3.9
|
8.3
|
1.0
|
CD1
|
A:LEU56
|
4.0
|
15.6
|
1.0
|
O
|
A:PRO52
|
4.0
|
11.2
|
1.0
|
O
|
A:HOH417
|
4.1
|
24.4
|
1.0
|
CB
|
A:PHE28
|
4.1
|
9.0
|
1.0
|
CB
|
A:ALA29
|
4.2
|
7.8
|
1.0
|
CE2
|
A:PHE61
|
4.3
|
10.4
|
1.0
|
CZ
|
A:PHE61
|
4.5
|
10.5
|
1.0
|
CA
|
A:PHE28
|
4.6
|
7.9
|
1.0
|
C
|
A:PRO52
|
4.7
|
10.7
|
1.0
|
CB
|
A:SER55
|
4.7
|
10.3
|
1.0
|
O
|
A:THR25
|
4.7
|
9.9
|
1.0
|
CG
|
A:PHE32
|
4.8
|
7.5
|
1.0
|
CB
|
A:PRO52
|
4.8
|
13.0
|
1.0
|
O
|
A:HOH338
|
4.9
|
14.5
|
1.0
|
C
|
A:ALA29
|
5.0
|
7.5
|
1.0
|
|
Krypton binding site 2 out
of 4 in 5o17
Go back to
Krypton Binding Sites List in 5o17
Krypton binding site 2 out
of 4 in the Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
Mono view
Stereo pair view
|
A full contact list of Krypton with other atoms in the Kr binding
site number 2 of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Kr205
b:30.8
occ:1.00
|
CG
|
A:LEU136
|
3.9
|
25.0
|
1.0
|
CA
|
A:TYR137
|
3.9
|
17.5
|
1.0
|
CZ3
|
A:TRP133
|
4.0
|
16.8
|
1.0
|
N
|
A:TYR137
|
4.0
|
20.2
|
1.0
|
CD2
|
A:LEU136
|
4.1
|
25.1
|
1.0
|
CG2
|
A:ILE72
|
4.1
|
16.8
|
1.0
|
CD1
|
A:TYR137
|
4.1
|
17.4
|
1.0
|
CG2
|
A:VAL140
|
4.1
|
19.2
|
1.0
|
CB
|
A:TYR137
|
4.2
|
16.9
|
1.0
|
CD2
|
A:LEU113
|
4.2
|
15.3
|
1.0
|
CE3
|
A:TRP133
|
4.3
|
16.5
|
1.0
|
C
|
A:LEU136
|
4.4
|
22.7
|
1.0
|
CB
|
A:ALA75
|
4.4
|
25.1
|
1.0
|
O
|
A:LEU136
|
4.5
|
21.3
|
1.0
|
CG1
|
A:ILE72
|
4.5
|
16.8
|
1.0
|
CB
|
A:LEU136
|
4.7
|
23.7
|
1.0
|
CG
|
A:TYR137
|
4.7
|
17.3
|
1.0
|
CB
|
A:ILE72
|
4.7
|
16.2
|
1.0
|
CB
|
A:VAL140
|
4.8
|
19.4
|
1.0
|
CA
|
A:ILE72
|
4.8
|
16.7
|
1.0
|
CD1
|
A:LEU136
|
4.8
|
26.4
|
1.0
|
|
Krypton binding site 3 out
of 4 in 5o17
Go back to
Krypton Binding Sites List in 5o17
Krypton binding site 3 out
of 4 in the Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
Mono view
Stereo pair view
|
A full contact list of Krypton with other atoms in the Kr binding
site number 3 of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Kr206
b:33.4
occ:0.35
|
CG1
|
A:VAL109
|
3.5
|
13.5
|
1.0
|
CD1
|
A:ILE72
|
3.6
|
19.0
|
1.0
|
CE1
|
A:TYR137
|
3.7
|
17.5
|
1.0
|
CMC
|
A:HEM201
|
3.9
|
19.7
|
1.0
|
CG1
|
A:ILE72
|
4.1
|
16.8
|
1.0
|
CG1
|
A:VAL68
|
4.1
|
14.2
|
1.0
|
CD1
|
A:LEU27
|
4.2
|
10.7
|
1.0
|
CD2
|
A:LEU113
|
4.2
|
15.3
|
1.0
|
CBC
|
A:HEM201
|
4.3
|
20.9
|
1.0
|
CD1
|
A:TYR137
|
4.3
|
17.4
|
1.0
|
CB
|
A:LEU113
|
4.4
|
12.8
|
1.0
|
CZ
|
A:TYR137
|
4.6
|
17.2
|
1.0
|
CG
|
A:LEU113
|
4.7
|
14.7
|
1.0
|
OH
|
A:TYR137
|
4.7
|
17.9
|
1.0
|
O
|
A:VAL109
|
4.8
|
10.4
|
1.0
|
CD1
|
A:LEU113
|
4.8
|
15.5
|
1.0
|
CB
|
A:VAL109
|
5.0
|
12.1
|
1.0
|
|
Krypton binding site 4 out
of 4 in 5o17
Go back to
Krypton Binding Sites List in 5o17
Krypton binding site 4 out
of 4 in the Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton
Mono view
Stereo pair view
|
A full contact list of Krypton with other atoms in the Kr binding
site number 4 of Crystal Structure of Murine Neuroglobin Under 100 Bar Krypton within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Kr210
b:34.2
occ:0.20
|
CB
|
A:TYR137
|
3.1
|
16.9
|
1.0
|
O
|
A:HOH409
|
3.3
|
35.7
|
1.0
|
CG
|
A:LEU114
|
3.5
|
17.7
|
1.0
|
CG
|
A:TYR137
|
3.5
|
17.3
|
1.0
|
O
|
A:GLY110
|
3.6
|
10.5
|
1.0
|
CD2
|
A:LEU114
|
3.6
|
19.1
|
1.0
|
O
|
A:TRP133
|
3.7
|
22.4
|
1.0
|
CD2
|
A:TYR137
|
3.8
|
17.3
|
1.0
|
CA
|
A:SER134
|
4.0
|
21.1
|
1.0
|
CD1
|
A:LEU114
|
4.0
|
21.4
|
1.0
|
CA
|
A:GLY110
|
4.0
|
10.5
|
1.0
|
C
|
A:TRP133
|
4.1
|
21.0
|
1.0
|
CD2
|
A:LEU113
|
4.1
|
15.3
|
1.0
|
C
|
A:GLY110
|
4.1
|
10.3
|
1.0
|
N
|
A:SER134
|
4.2
|
21.1
|
1.0
|
O
|
A:HOH376
|
4.4
|
38.3
|
1.0
|
CD1
|
A:TYR137
|
4.4
|
17.4
|
1.0
|
CG
|
A:LEU113
|
4.5
|
14.7
|
1.0
|
CA
|
A:TYR137
|
4.6
|
17.5
|
1.0
|
CB
|
A:LEU113
|
4.6
|
12.8
|
1.0
|
CE2
|
A:TYR137
|
4.7
|
17.3
|
1.0
|
CB
|
A:LEU114
|
4.8
|
15.6
|
1.0
|
O
|
A:SER134
|
4.8
|
19.8
|
1.0
|
N
|
A:LEU114
|
4.8
|
11.9
|
1.0
|
CB
|
A:SER134
|
4.8
|
23.0
|
1.0
|
C
|
A:SER134
|
4.8
|
21.4
|
1.0
|
CB
|
A:TRP133
|
4.9
|
19.9
|
1.0
|
N
|
A:TYR137
|
4.9
|
20.2
|
1.0
|
|
Reference:
N.Colloc'h,
P.Carpentier,
L.C.Montemiglio,
B.Vallone,
T.Prange.
Mapping Hydrophobic Tunnels and Cavities in Neuroglobin with Noble Gas Under Pressure. Biophys. J. V. 113 2199 2017.
ISSN: ESSN 1542-0086
PubMed: 29108649
DOI: 10.1016/J.BPJ.2017.10.014
Page generated: Tue Aug 13 01:27:22 2024
|